Table 2 |
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|
Array-based expression values of upregulated or downregulated genes in pre-inflamed joint |
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|
Affy ID |
Description |
Gene |
Mean AN expression |
AN presence call |
Mean PA expression |
PA presence call |
Fold |
Cluster |
|
|
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|
161968_f_at |
Chemokine (CC motif) receptor 5 |
Ccr5 |
1 |
A |
57.1 |
P |
57.1 |
D |
|
95349_g_at |
Chemokine (CXC motif) ligand 1 |
Cxcl1 |
1 |
A |
55.9 |
P |
55.9 |
D |
|
104750_at |
Interferon-γ inducible protein |
Ifi47 |
0.69 |
A |
15.69 |
P |
22.7 |
D |
|
130509_at |
Membrane-spanning 4-domains member A6C |
Ms4a6c |
1.17 |
A |
10.27 |
P |
8.78 |
D |
|
93106_i_at |
T-cell receptor beta, variable 13 |
Tcrbv13 |
1.86 |
A |
10.34 |
P |
5.55 |
A |
|
98474_r_at |
Tumor necrosis factor-α induced protein 6 |
Tnfaip6 |
3.61 |
A |
19.97 |
P |
5.54 |
D |
|
94761_at |
Chemokine (CC motif) ligand 7 |
Ccl7 |
24.47 |
A |
115.33 |
P |
4.71 |
D |
|
101578_f_at |
Actin, β, cytoplasmic |
Actg |
188.33 |
P |
859.16 |
P |
4.56 |
A |
|
102736_at |
Chemokine (CC motif) ligand 2 |
Ccl2 |
29.89 |
P |
125.48 |
P |
4.20 |
D |
|
95121_at |
Polymerase (DNA-directed) ε 4 p12 |
Pole4 |
8.95 |
P |
26.13 |
P |
2.92 |
C |
|
93397_at |
Chemokine (CC) receptor 2 |
Ccr2 |
93.67 |
P |
259.21 |
P |
2.77 |
D |
|
102906_at |
T cell-specific GTPase |
Tgtp |
24.27 |
A |
66.03 |
P |
2.72 |
D |
|
97322_at |
Membrane-spanning 4-domains member A6B |
Ms4a6b |
9.43 |
A |
25.16 |
P |
2.67 |
D |
|
93514_at |
Myosin, light polypeptide 3 |
Myl3 |
29.28 |
A |
77.42 |
P |
2.64 |
A |
|
103089_at |
CD48 antigen |
Cd48 |
34.17 |
A |
85.82 |
P |
2.51 |
C |
|
103507_at |
EGF-like hormone receptor-like sequence 1 |
Emr1 |
59.04 |
A |
145.95 |
P |
2.47 |
D |
|
96764_at |
Interferon-inducible GTPase |
Ifigtp |
66.38 |
A |
157.88 |
P |
2.38 |
D |
|
102326_at |
Neutrophil cytosolic factor 2 |
Ncf2 |
23.67 |
P |
55.88 |
P |
2.36 |
D |
|
104388_at |
Chemokine (CC motif) ligand 9 |
Ccl9 |
246.56 |
P |
568.47 |
P |
2.31 |
D |
|
93321_at |
Interferon-activated gene 203 |
Ifi203 |
43.58 |
P |
99.27 |
P |
2.28 |
C |
|
94085_at |
Proteoglycan, secretory granule |
Prg |
329.68 |
P |
747.2 |
P |
2.27 |
D |
|
92762_at |
C-type lectin, superfamily member 6 |
Clecsf6 |
35.73 |
A |
80.64 |
P |
2.26 |
D |
|
93136_at |
Dermatan sulphate proteoglycan 3 |
Dspg3 |
30.23 |
A |
67.77 |
P |
2.24 |
B |
|
101753_s_at |
P lysozyme structural |
Lzps |
635.78 |
P |
1398.72 |
P |
2.20 |
D |
|
94939_at |
CD53 antigen |
Cd53 |
112.16 |
P |
243.17 |
P |
2.17 |
D |
|
94958_at |
RIKEN cDNA 1110013L07 gene |
1110013L07Rik |
24.91 |
A |
53.7 |
P |
2.16 |
A |
|
162066_f_at |
Rho interacting protein 3 |
Rip3 |
19.15 |
A |
40.54 |
P |
2.12 |
A |
|
93039_at |
RIKEN cDNA 1190003P12 gene |
1190003P12Rik |
36.44 |
P |
77.03 |
P |
2.11 |
A |
|
101048_at |
Protein tyrosine phosphatase, receptor type, C |
Ptprc |
138.7 |
A |
289.19 |
P |
2.09 |
D |
|
92217_s_at |
Glycoprotein 49 B |
Gp49b |
72.11 |
P |
148.01 |
P |
2.05 |
D |
|
93869_s_at |
Hematopoietic-specific A1-d protein |
Bcl2a1a |
49.43 |
A |
100.11 |
P |
2.03 |
D |
|
103989_at |
RIKEN cDNA 4432417F03 gene |
4432417F03Rik |
35.66 |
A |
72.18 |
P |
2.02 |
B |
|
160611_at |
Cytochrome P450 polypeptide 4v3 |
Cyp4v3 |
82 |
P |
164.59 |
P |
2.01 |
B |
|
162107_r_at |
Tissue inhibitor of metalloproteinase 1 |
Timp1 |
9.64 |
P |
4.39 |
A |
-2.20 |
E |
|
164493_i_at |
Makorin, ring finger protein, 1 |
Mkrn1 |
8.23 |
P |
3.21 |
A |
-2.56 |
F |
|
167637_i_at |
RIKEN cDNA 4833424O15 gene |
4833424O15Rik |
8.19 |
P |
2.64 |
A |
-3.11 |
F |
|
167950_r_at |
Terf1 (TRF1)-interacting nuclear factor 2 |
Tinf2 |
8.82 |
P |
1.65 |
P |
-5.35 |
E |
|
|
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|
Affy ID, unique Affymetrix probe set identifier. Description, gene description. Gene, gene abbreviation. Mean AN expression, average expression value in basal experimental condition of clinically normal paws of naive severe combined immunodeficient mice without cell transfer. Mean PA expression, average expression value in pre-arthritic joints. Presence call, average presence call for gene in AN or PA experimental condition: P, transcript was actually present in the majority of samples; A, transcript was actually absent in the majority of samples. Fold, fold change in gene expression in PA joint compared with AN basal expression. Cluster, cluster designation from Fig. 5. Difference in expression was significant by Mann–Whitney U-test, P < 0.05. Differential expression for listed genes was either greater than twofold overexpression or less than twofold downregulation (negative values). Genes that were differentially expressed in both pre-inflamed paws and in vitro-stimulated lymphocytes used for cell transfer are shown in bold type. |
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|
Adarichev et al. Arthritis Res Ther 2005 7:R196 doi:10.1186/ar1472 |
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